[ensembl-dev] Info/Doc on the Ensembl SNP pipeline?

[Jan Vogel]

Hello Ensembl, 

I'd like to find out more on how Ensembl calls SNP's. I've got FASTQ files which I would like to align against the human genome to call SNPs, mainly as a "proof of concept". 

I read through "Ensembl variation resources" (http://www.biomedcentral.com/1471-2164/11/293) and also checked 
out the ensembl-variation/documentation/README.snp.calling.txt in CVS.

Is this pipeline still in use ? And can you point me to other resources on the Ensembl SNP pipeline ? 

Thanks, 

  Jan Vogel
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